Datasets for neighbor-dependent gene expression analysis with CellNeighborEX

The following datasets were used for CellNeighborEX: SSembryo_log_data.txt is the pre-processed expression data file in the mouse embryo Slide-seq data (Puck_190926_03). SSembryo_cell_id.txt contains information on the bead barcodes in the embryo data. SSembryo_gene_name.txt is the list of top 2000 genes plus cell type markers for the embryo data.SSembryo_RCTD.csv is the data file produced based on the result of deconvolution tool RCTD for the embryo data.SSembryo_abbrev.csv includes the abbreviations for cell types in the embryo data.SShippo_log_data.txt is the pre-processed expression data file in the mouse hippocampus Slide-seq data (Puck_200115_08). SShippo_cell_id.txt contains information on the bead barcodes in the hippocampus data. SShippo_gene_name.txt is the list of top 2000 genes plus cell type markers for the hippocampus data.SShippo_RCTD.csv is the data file produced based on the result of deconvolution tool RCTD for the hippocampus data.SShippo_abbrev.csv includes the abbreviations for cell types in the hippocampus data.SSliver_log_data.txt is the pre-processed expression data file in the mouse liver cancer Slide-seq data (mouse_liver_met_2_rna_201002_04). SSliver_cell_id.txt contains information on the bead barcodes in the liver cancer data. SSliver_gene_name.txt is the list of top 2000 genes plus cell type markers for the liver cancer data.SSliver_RCTD.csv is the data file produced based on the result of deconvolution tool RCTD for the liver cancer data.